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Crystal Structure of an Unknown Protein from Galdieria sulphuraria
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Protein solution (10 mg/mL protein, 0.050 M Sodium chloride, 0.0003 M TCEP, 0.005 M MES pH 6.0) mixed in a 1:1 ratio with the well solution (24% PEG 8000, 0.04 M Magnesium chloride, 0.2 M Sodium fluoride, 0.10 M PIPES pH 6.5). Cryoprotection: well solution supplemented with up to 20% ethylene glycol, vapor diffusion, hanging drop, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.68 54.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.013 α = 90 b = 79.991 β = 111.25 c = 55.53 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 300 mm CCD Adjustable focusing mirrors in K-B geometry 2006-11-08 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97923, 0.96400 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.8 45.62 96.3 0.071 11.673 7.4 39789
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.84 83.2 0.419 2.656 4.9 2291
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.8 45.62 39742 39742 2027 96.021 0.178 0.178 0.176 0.1847 0.214 0.2161 RANDOM 27.458
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.248 0.362 0.326 -0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.269 r_dihedral_angle_4_deg 17.258 r_dihedral_angle_3_deg 12.62 r_scangle_it 8.885 r_scbond_it 6.255 r_dihedral_angle_1_deg 5.621 r_mcangle_it 2.677 r_mcbond_it 1.446 r_angle_refined_deg 1.287 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.269 r_dihedral_angle_4_deg 17.258 r_dihedral_angle_3_deg 12.62 r_scangle_it 8.885 r_scbond_it 6.255 r_dihedral_angle_1_deg 5.621 r_mcangle_it 2.677 r_mcbond_it 1.446 r_angle_refined_deg 1.287 r_nbtor_refined 0.299 r_nbd_refined 0.2 r_symmetry_hbond_refined 0.177 r_xyhbond_nbd_refined 0.16 r_symmetry_vdw_refined 0.156 r_chiral_restr 0.096 r_bond_refined_d 0.017 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2589 Nucleic Acid Atoms Solvent Atoms 370 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection HKL-2000 data reduction